scholarly journals Validation of a 6-Dye Short Tandem Repeat System: A Dry Kit With Lyophilized Amplification Reagent

2021 ◽  
Vol 12 ◽  
Author(s):  
Shuanglin Li ◽  
Jinfeng Lin ◽  
Honglei Hao ◽  
Haiying Jin ◽  
Danlu Song ◽  
...  
Keyword(s):  
Tandem Repeats ◽  
Dna Analysis ◽  
Cumulative Probability ◽  
Optimal Range ◽  
System A ◽  
Total Input ◽  
Amplification System ◽  
Autosomal Short Tandem Repeats ◽  
The Stability ◽  
Short Tandem

The SureID®S6 system used a lyophilized pellet as the amplification reagent to enable multiplexing of sex-determining marker Amelogenin, 21 autosomal short tandem repeats (STRs), and one Y-STR. To assess the performance, reliability, and limitation of the dry amplification system, the validation studies including PCR condition, reproducibility, sizing and precision, analytical threshold calculation, sensitivity and stochastic threshold calculation, species specificity, stability, mixture, case sample, and population and concordance were conducted according to the Scientific Working Group on DNA Analysis Methods (SWGDAM) Validation Guidelines. Experimental data suggested that the optimal range of total input DNA was from 125 to 500 pg; the appropriate analytical threshold was 80 relative fluorescence units (RFUs) while the stochastic threshold was 260 RFUs; for the stability studies, SureID®S6 system could resist against less than 500 μmol/L of hematin, 100 ng/μl of humic acid, 4 mM of indigotin, 800 mM of tannic acid, and 800 mM of calcium ion. Population and concordance studies using 500 unrelated individuals showed that the combined probability of discrimination (CPD) and cumulative probability of exclusion (CPE) values were 0.999999999999 and 0.999999998416, respectively. The genotypes for the same sample were concordant with the previously validated HUAXIA™ Platinum kit. The validation results demonstrated that the SureID®S6 system could be used for forensic applifications.

Genetic polymorphism of 15 autosomal short tandem repeats in Baloch population of Pakistan

2018 ◽  
Vol 133 (3) ◽  
pp. 775-776 ◽  
Author(s):  
Aleena Ahmad Khan ◽  
Rukhsana Perveen ◽  
Nadeem Sheikh ◽  
Babar Hilal Ahmad Abbasi ◽  
Zunaira Batool ◽  
...  
Keyword(s):  
Genetic Polymorphism ◽  
Short Tandem Repeats ◽  
Tandem Repeats ◽  
Autosomal Short Tandem Repeats ◽  
Short Tandem

Mutation analysis of 21 autosomal short tandem repeats in Han population from Hunan, China

2019 ◽  
Vol 46 (3) ◽  
pp. 254-260
Author(s):  
Wei Xu ◽  
Yuequn Wang ◽  
Dandan Zhang ◽  
Daixin Wang ◽  
Liang Zhou ◽  
...  
Keyword(s):  
Mutation Analysis ◽  
Short Tandem Repeats ◽  
Tandem Repeats ◽  
Han Population ◽  
Autosomal Short Tandem Repeats ◽  
Short Tandem

Mutation analysis of 19 autosomal short tandem repeats in Chinese Han population from Shanghai

2016 ◽  
Vol 130 (6) ◽  
pp. 1439-1444 ◽  
Author(s):  
Chengchen Shao ◽  
Mingxi Lin ◽  
Zhihan Zhou ◽  
Yueqin Zhou ◽  
Yiwen Shen ◽  
...  
Keyword(s):  
Mutation Analysis ◽  
Short Tandem Repeats ◽  
Tandem Repeats ◽  
Chinese Han Population ◽  
Chinese Han ◽  
Han Population ◽  
Autosomal Short Tandem Repeats ◽  
Short Tandem

Recombination analysis of autosomal short tandem repeats in Chinese Han families

2013 ◽  
Vol 35 (6) ◽  
pp. 883-887 ◽  
Author(s):  
Qiu-Ling Liu ◽  
Hong Luo ◽  
Hu Zhao ◽  
Xiao-Ling Huang ◽  
Jian-Ding Cheng ◽  
...  
Keyword(s):  
Short Tandem Repeats ◽  
Tandem Repeats ◽  
Recombination Analysis ◽  
Chinese Han ◽  
Autosomal Short Tandem Repeats ◽  
Short Tandem

Generation and characterization of human Fetal membrane and Decidual cell lines for reproductive biology experiments

2021 ◽  
Author(s):  
Enkhtuya Radnaa ◽  
Rheanna Urrabaz-Garza ◽  
Nathan D Elrod ◽  
Mariana Castro Silva ◽  
Richard Pyles ◽  
...  
Keyword(s):  
Cell Lines ◽  
Short Tandem Repeats ◽  
Tandem Repeats ◽  
Dna Analysis ◽  
Fetal Membrane ◽  
Primary Cells ◽  
Immortalized Cells ◽  
Passage Number ◽  
Maternal Decidua ◽  
Short Tandem

Abstract Human fetal membrane and maternal decidua parietalis form one of the major feto-maternal interfaces during pregnancy. Studies on this feto-maternal interface is limited as several investigators have limited access to the placenta, and experience difficulties to isolate and maintain primary cells. Many cell lines that are currently available do not have the characteristics or properties of their primary cells of origin. Therefore, we created, characterized the immortalized cells from primary isolates from fetal membrane-derived amnion epithelial cells, amnion and chorion mesenchymal cells, chorion trophoblast cells and maternal decidua parietalis cells. Primary cells were isolated from a healthy full-term, not in labor placenta. Primary cells were immortalized using either a HPV16E6E7 retroviral or a SV40T lentiviral system. The immortalized cells were characterized for the morphology, cell type-specific markers, and cell signalling pathway activation. Genomic stability of these cells was tested using RNA seq, karyotyping, and short tandem repeats DNA analysis. Immortalized cells show their characteristic morphology, and express respective epithelial, mesenchymal and decidual markers similar to that of primary cells. Gene expression of immortalized and primary cells were highly correlated (R = 0.798 to R = 0.974). Short tandem repeats DNA analysis showed in the late passage number (>P30) of cell lines matched 84-100% to the early passage number (<P10) of the cell lines revealing there were no genetic drift over the passages. Karyotyping also revealed no chromosomal anomalies. Creation of these cell lines can standardize experimental approaches, eliminate subject to subject variabilities, and benefit the reproductive biological studies on pregnancies by using these cells.

scholarly journals Population Genetic Analysis of the Estonian Native Horse Suggests Diverse and Distinct Genetics, Ancient Origin and Contribution from Unique Patrilines

Genes ◽  
2019 ◽  
Vol 10 (8) ◽  
pp. 629 ◽  
Author(s):  
Caitlin Castaneda ◽  
Rytis Juras ◽  
Anas Khanshour ◽  
Ingrid Randlaht ◽  
Barbara Wallner ◽  
...  
Keyword(s):  
Tandem Repeats ◽  
Medium Size ◽  
Nucleotide Polymorphisms ◽  
Population Genetic Analysis ◽  
Single Nucleotide ◽  
Northern European ◽  
Loop Sequence ◽  
D Loop ◽  
Autosomal Short Tandem Repeats ◽  
Short Tandem

The Estonian Native Horse (ENH) is a medium-size pony found mainly in the western islands of Estonia and is well-adapted to the harsh northern climate and poor pastures. The ancestry of the ENH is debated, including alleged claims about direct descendance from the extinct Tarpan. Here we conducted a detailed analysis of the genetic makeup and relationships of the ENH based on the genotypes of 15 autosomal short tandem repeats (STRs), 18 Y chromosomal single nucleotide polymorphisms (SNPs), mitochondrial D-loop sequence and lateral gait allele in DMRT3. The study encompassed 2890 horses of 61 breeds, including 33 ENHs. We show that the expected and observed genetic diversities of the ENH are among the highest within 52 global breeds, and the highest among 8 related Northern European ponies. The genetically closest breeds to the ENH are the Finn Horse, and the geographically more distant primitive Hucul and Konik. ENH matrilines are diverse and relate to draught and Pontic-Caspian breeds. ENH patrilines relate to draught breeds, and to a unique haplogroup not described before. None of the 33 ENHs carried the “gait” mutation, but the mutation was found in 2 Huculs. The study demonstrates that the ENH is a genetically distinct and diverse breed of ancient origin with no notable pressure of selective breeding.

Sign in / Sign up

Export Citation Format

Share Document